nextflow.config

// vim: syntax=groovy expandtab
// BACTpipe Nextflow configuration file

manifest {
    homePage = 'https://bactpipe.readthedocs.io'
    description = 'BACTpipe - whole genome assembly, species identification and annotation pipeline'
    mainScript = 'bactpipe.nf'
    nextflowVersion = '>=21.04.0'
    version = '3.1.0'
}

report {
    enabled = true
    file = "BACTpipe_report.html"
}

timeline {
    enabled = true
    file = "BACTpipe_timeline.html"
}


profiles {
    standard {
        includeConfig 'conf/params.config'
        includeConfig 'conf/local.config'
    }
    ctmr_nas {
        includeConfig 'conf/params.config'
        includeConfig 'conf/ctmr_nas.config'
    }
    ctmr_gandalf {
        includeConfig 'conf/params.config'
        includeConfig 'conf/ctmr_gandalf.config'
    }
    rackham {
        includeConfig 'conf/params.config'
        includeConfig 'conf/rackham.config'
    }
    docker {
        includeConfig 'conf/params.config'
        includeConfig 'conf/docker.config'
    }
    dardel {
        includeConfig 'conf/params.config'
        includeConfig 'conf/dardel.config'
    }
}
params.profiles_that_require_project = ['rackham', 'dardel']